SMTL ID : 1t5g.1

Arginase-F2-L-Arginine complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-trimer

Ligands

6 x F: FLUORIDE ION(Non-covalent)

F.1: 8 residues within 4Å: Chain A: D.119, H.121, D.123, D.227 Ligands: F.2, MN.3, MN.4, ARG.5 No protein-ligand interaction detected (PLIP) F.2: 8 residues within 4Å: Chain A: H.96, D.123, D.227, E.272 Ligands: F.1, MN.3, MN.4, ARG.5 No protein-ligand interaction detected (PLIP) F.6: 8 residues within 4Å: Chain B: D.119, H.121, D.123, D.227 Ligands: F.7, MN.8, MN.9, ARG.10 No protein-ligand interaction detected (PLIP) F.7: 8 residues within 4Å: Chain B: H.96, D.123, D.227, E.272 Ligands: F.6, MN.8, MN.9, ARG.10 No protein-ligand interaction detected (PLIP) F.11: 8 residues within 4Å: Chain C: D.119, H.121, D.123, D.227 Ligands: F.12, MN.13, MN.14, ARG.15 No protein-ligand interaction detected (PLIP) F.12: 8 residues within 4Å: Chain C: H.96, D.123, D.227, E.272 Ligands: F.11, MN.13, MN.14, ARG.15 No protein-ligand interaction detected (PLIP)

6 x MN: MANGANESE (II) ION(Non-covalent)

MN.3: 8 residues within 4Å: Chain A: D.119, H.121, D.227, D.229 Ligands: F.1, F.2, MN.4, ARG.5 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.119, A:H.121, A:D.227, A:D.229, A:D.229 MN.4: 8 residues within 4Å: Chain A: H.96, D.119, D.123, D.227 Ligands: F.1, F.2, MN.3, ARG.5 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.96, A:D.119, A:D.123, A:D.227 MN.8: 8 residues within 4Å: Chain B: D.119, H.121, D.227, D.229 Ligands: F.6, F.7, MN.9, ARG.10 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.119, B:H.121, B:D.227, B:D.229, B:D.229 MN.9: 8 residues within 4Å: Chain B: H.96, D.119, D.123, D.227 Ligands: F.6, F.7, MN.8, ARG.10 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.96, B:D.119, B:D.123, B:D.227 MN.13: 8 residues within 4Å: Chain C: D.119, H.121, D.227, D.229 Ligands: F.11, F.12, MN.14, ARG.15 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:D.119, C:H.121, C:D.227, C:D.229, C:D.229 MN.14: 8 residues within 4Å: Chain C: H.96, D.119, D.123, D.227 Ligands: F.11, F.12, MN.13, ARG.15 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:H.96, C:D.119, C:D.123, C:D.227

3 x ARG: ARGININE(Non-covalent)

ARG.5: 13 residues within 4Å: Chain A: H.121, D.123, N.125, A.136, G.137, D.178, E.181, D.227, E.272 Ligands: F.1, F.2, MN.3, MN.4 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:H.121 Hydrogen bonds: A:N.125 Water bridges: A:S.131 Salt bridges: A:D.123, A:E.272 pi-Cation interactions: A:H.121 ARG.10: 13 residues within 4Å: Chain B: H.121, D.123, N.125, A.136, G.137, D.178, E.181, D.227, E.272 Ligands: F.6, F.7, MN.8, MN.9 8 PLIP interactions: 8 interactions with chain B, Hydrophobic interactions: B:H.121 Hydrogen bonds: B:N.125 Water bridges: B:D.123, B:S.131, B:E.181 Salt bridges: B:D.123, B:E.272 pi-Cation interactions: B:H.121 ARG.15: 13 residues within 4Å: Chain C: H.121, D.123, N.125, A.136, G.137, D.178, E.181, D.227, E.272 Ligands: F.11, F.12, MN.13, MN.14 8 PLIP interactions: 7 interactions with chain C, 1 Ligand-Ligand interactions Hydrophobic interactions: C:H.121 Hydrogen bonds: C:N.125 Water bridges: C:S.131, C:S.132, R.15 Salt bridges: C:D.123, C:E.272 pi-Cation interactions: C:H.121

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cama, E. et al., Inhibitor coordination interactions in the binuclear manganese cluster of arginase. Biochemistry (2004)

Release Date

2004-10-12

Peptides

Arginase 1: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Arginase 1

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